Aim: Achieving strain-level amplicon-based bacterial microbiome profiling with nanopore-quality reads.
What species (and, ideally, strains of species) are present and in what relative abundance?
Nanopore sequencing - noisy, long reads.
Denoising to give Amplicon Sequence Variants (ASVs).
Look for matches against an appropriate database.
Can then determine what organisms are present and, relatively, how much of each.
Have developed a method for analysing matches to profile bacterial microbiota.
Paucity of high quality nanopore-sequenced amplicon data publicly available.
Good simulated data has allowed markedly more complete evaluation of the profiling method.